Modeling the regulation of bacterial genes producing proteins that strongly influence growth

A theoretical method for comparing the performance of rival models of bacterial genetic regulation is presented. The particukar difficulties involved in describing the regulated synthesis of proteins that strongly influence cell growth are identiied, and the method is specifically designed to treat such cases. The method employs a mathematical description of intrinsic perturbations occurring during exponential growth to test the performance of regulatory models. Specific models of transcriptional and translational regulation are inserted into a general gene‐expression framework in order to determine their control responses. Applying thhis approach to examine the regulation of RNA polymerase synthesis in Eschericia coli provides support for the hypothesis that rpoB translation is regulated by cooperative binding of multiple RNA polymerase molecules to the mRNA. The framework is of a sufficiently general form that the method can be used to study mechanisms involved in controlling synthesis of any bacterial protein. © 1994 John Wiley & Sons, Inc.

[1]  S W Lin,et al.  Vectors for selective expression of cloned DNAs by T7 RNA polymerase. , 1987, Gene.

[2]  J. Monod,et al.  Genetic regulatory mechanisms in the synthesis of proteins. , 1961, Journal of molecular biology.

[3]  A. Ishihama,et al.  Biosynthesis of RNA polymerase in Escherichia coli. IV. Accumulation of intermediates in mutants defective in the subunit assembly. , 1977, Journal of molecular biology.

[4]  W. McClure,et al.  Mechanism and control of transcription initiation in prokaryotes. , 1985, Annual review of biochemistry.

[5]  M. Yamamoto,et al.  Mapping of a cluster of genes for components of the transcriptional and translational machineries of Escherichia coli. , 1977, Journal of molecular biology.

[6]  J. Bailey,et al.  Toward a science of metabolic engineering , 1991, Science.

[7]  T. Linn,et al.  Relative activities of the transcriptional regulatory sites in the rplKAJLrpoBC gene cluster of Escherichia coli , 1984, Journal of bacteriology.

[8]  R. Burgess,et al.  Use of difference boundary sedimentation velocity to investigate nonspecific protein-nucleic acid interactions. , 1980, Biochemistry.

[9]  T. Beebee,et al.  Gene structure and transcription , 1988 .

[10]  J. Ilan.  Translational Regulation of Gene Expression 2 , 2012, Springer US.

[11]  R. Mosteller,et al.  Metabolism of individual proteins in exponentially growing Escherichia coli. , 1980, The Journal of biological chemistry.

[12]  P. V. von Hippel,et al.  Protein-nucleic acid interactions in transcription: a molecular analysis. , 1984, Annual review of biochemistry.

[13]  V. V. Gubanov,et al.  The primary structure of Escherichia coli RNA polymerase. Nucleotide sequence of the rpoB gene and amino-acid sequence of the beta-subunit. , 1981, European journal of biochemistry.

[14]  J. Belasco,et al.  Mechanisms of mRNA decay in bacteria: a perspective. , 1988, Gene.

[15]  Walter Gilbert,et al.  E. coli RNA polymerase interacts homologously with two different promoters , 1980, Cell.

[16]  R E Glass,et al.  Autogenous posttranscriptional regulation of RNA polymerase beta and beta' subunit synthesis in Escherichia coli , 1985, Journal of bacteriology.

[17]  W R McClure,et al.  Characterization of ribonucleic acid polymerase-T7 promoter binary complexes. , 1980, Biochemistry.

[18]  T. Linn,et al.  Autogenous regulation of the RNA polymerase beta subunit of Escherichia coli occurs at the translational level in vivo , 1989, Journal of bacteriology.

[19]  N. Robakis,et al.  In vitro synthesis of the first dipeptide of the beta subunit of Escherichia coli RNA polymerase. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[20]  P. Dennis,et al.  Transcription products from the rplKAJL-rpoBC gene cluster. , 1987, Journal of molecular biology.

[21]  J. Belasco,et al.  Control of RNase E-mediated RNA degradation by 5′-terminal base pairing in E. coil , 1992, Nature.